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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgaatgtctccattttttatttacttttctcaccttggatattataaaattattttactcatgatattatggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACCCGCCTTCCTAATGCTCGACCACTTCCTCCACTGTTTAATTTTAAACCTC

Basic information

species Glycine max
transcript GLYMA12G28730.1
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G28730.1 (Glycine max), 3'ss of exon 11
lower sequence: AT1G09840.2 (Arabidopsis thaliana), 3'ss of exon 12
gtaagttgaatgtctccattttttatttacttttctcaccttggatattataaaattattttactcatgatatta-tggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACCCGCCTTCCTAATGCTCGACCACTTCCTCCACTGTTTAATTTTAAACCTC
||||||| | |   ||| ||   |   ||   ||  || ||   ||  | |||| | |||  |  ||   |  |  ||  | || ||||||||||||| || ||||| || ||||||||  | |||||||||||||| || ||||| ||||  ||||||||||||||||| || || |||||||| |
gtaagttaattcgttccgttccctccata---ttagcatct--aatgatctaaattcattaaaaacactcttctggtgttattgtagTTGGAAGCTTGTATCCATCCGTTATTTGATGAGCTAAGGGACCCAAACACTCGTCTTCCCAATGGCCGACCACTTCCTCCACTTTTCAACTTTAAACCGC

upper sequence: GLYMA12G28730.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv12s0035g01060.t01 (Vitis vinifera), 3'ss of exon 10
gtaagttgaatgtctccat---------tttttatttacttttctcaccttggatattataaaattattttactcatgat-atta------tggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACCCGCCTTCCTAATGCTCGACCACTTCCTCCACTGTTTAATTTTAAACCTC
||||||| |||   |   |         || | |   | ||  || |     | |  | |||   ||    |   ||||| |||       ||  | ||||||||||||||||||| || || || |||||||| ||||||||||| | ||| || ||||||||||  || || |||||||| || |||||||| |||||||
gtaagtttaatacttttttaagcattccttctcacaaatttgcctgagtggaggtgatctaatggtaaagcatgaatgatcatttctctattgatattgcagTTGGAAGCTTGCATCCACCCTTTCTTTGATGAGTTGAGGGACCCTAGCACTCGTCTTCCTAATGGCCGTCCTCTTCCTCCCCTCTTTAATTTCAAACCTC

upper sequence: GLYMA12G28730.1 (Glycine max), 3'ss of exon 11
lower sequence: PP1S74_168V6.1 (Physcomitrella patens), 3'ss of exon 9
------------gtaagttgaatgtctccattttttatttacttttctcaccttgg-atattataaaattattttactcat-gatattatggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACCCGCCTTCCTAATGCTCGACCACTTCCTCCACTGTTTAATTTTAAACCTC
            |     |||  || |   || |  || ||    |      ||   || |||     | |  | | |  | | |   |  |   ||||||||||||||||| | |||||||| ||||||||| |  | || || |||  |||  | || | ||  || || || || || |||||||||||||| | ||
gtgagaattggcgcgctgtgatggttttggttgtagatctaggaatgaattattaacatgttaatgcgtcagctgattggttgttgcgaacggtgtgcagTTGGAAGCTTGCGTGCATCCATTCTTTGATGAACTTCGAGATCCCAACTGCCGTTTGCCGAGTGGGCGGCCTCTGCCCCCGCTGTTTAATTTTAAGCGTC

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|193587866|gb|FK543489.1|FK543489
EST:     ACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCA                         TTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
genomic: ACCTTGTCTGTAGGTTCTTTCAGTACTCCCCCAATTTGAGATGCACTGCAgtaagttgaa ... ggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
EST: gi|6719212|gb|AW306859.1|AW306859
EST:     ACCTTGTCTGTAGGTTCTTTCAGTACTCCCCCAATTTGAGATGCACTGCA                         TTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
genomic: ACCTTGTCTGTAGGTTCTTTCAGTACTCCCCCAATTTGAGATGCACTGCAgtaagttgaa ... ggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
EST: gi|151408852|gb|EV278660.1|EV278660
EST:     ACCTTGTCTGTAGGTTCTTTCAGTACTCCCCCAATTTGAGATGCACTGCA                         TTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
genomic: ACCTTGTCTGTAGGTTCTTTCAGTACTCCCCCAATTTGAGATGCACTGCAgtaagttgaa ... ggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
EST: gi|9903227|gb|BE612195.1|BE612195
EST:     ACCTTGTTTGTAGGTTCTTTCAATACTCCCCCAATTTGAGATGCACTGCA                         TTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
genomic: ACCTTGTCTGTAGGTTCTTTCAGTACTCCCCCAATTTGAGATGCACTGCAgtaagttgaa ... ggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
EST: gi|13312538|gb|BG406189.1|BG406189
EST:     ACCTTGTCTGTAGGTTCTTTCAGTACTCCCCCAATTTGAGATGCACTGCA                         TTGGAAGCTTGCATTCATCCATTTTTTGATGAATTTGAGGGACCCAAA
genomic: ACCTTGTCTGTAGGTTCTTTCAGTACTCCCCCAATTTGAGATGCACTGCAgtaagttgaa ... ggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATT-GAGGGACCCAAA
EST: gi|13479623|gb|BG508966.1|BG508966
EST:     ACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCA                         TTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
genomic: ACCTTGTCTGTAGGTTCTTTCAGTACTCCCCCAATTTGAGATGCACTGCAgtaagttgaa ... ggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
EST: gi|7589778|gb|AW705545.1|AW705545
EST:     ACCTTGTCTGTAGGTTCTTTCAGTACTCTCCCAATTTGAGATGCACTGCA                         TTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC
genomic: ACCTTGTCTGTAGGTTCTTTCAGTACTCCCCCAATTTGAGATGCACTGCAgtaagttgaa ... ggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctcaccttggatattataaaattattttactcatgatattatggcactgcagTTGGAAGCTTGCATTCATCCATTTTTTGATGAATTGAGGGACCCAAACACCCGCCTTCCTAATGCTCGACCACTTCCTCCACTGTTTAATTTTAAACCTC
 ttctcac  putative branch site (score: 2)
         ttggatattataaaat  TA-rich tract